Variant report

Variant	rs10031399
Chromosome Location	chr4:110278217-110278218
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-COL25A1-1	chr4:110278199-110278716	ENSG00000247950

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs10014623	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10031251	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10155246	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs10488879	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10516557	0.84[CHD][hapmap];0.85[TSI][hapmap]
rs11098035	0.85[TSI][hapmap]
rs11937053	0.84[CHD][hapmap];0.85[TSI][hapmap]
rs12641197	0.92[ASN][1000 genomes]
rs12641272	0.92[ASN][1000 genomes]
rs12643881	0.81[CHD][hapmap];0.85[TSI][hapmap]
rs13104799	0.89[ASN][1000 genomes]
rs13126829	0.89[ASN][1000 genomes]
rs1557804	1.00[ASN][1000 genomes]
rs17040454	0.84[CHD][hapmap];0.85[TSI][hapmap]
rs17235830	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17842269	0.92[ASN][1000 genomes]
rs1859144	0.92[ASN][1000 genomes]
rs1859145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1859146	1.00[ASN][1000 genomes]
rs1981541	0.92[ASN][1000 genomes]
rs2079107	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2214377	0.92[ASN][1000 genomes]
rs28374470	0.89[ASN][1000 genomes]
rs28463999	0.92[ASN][1000 genomes]
rs28542804	0.92[ASN][1000 genomes]
rs60369504	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6825928	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs6826161	1.00[CHB][hapmap]
rs730310	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7665024	0.89[ASN][1000 genomes]
rs7680752	1.00[ASN][1000 genomes]
rs7680920	1.00[ASN][1000 genomes]
rs7694523	0.89[ASN][1000 genomes]
rs7695754	1.00[JPT][hapmap]
rs7699247	0.92[ASN][1000 genomes]
rs9307329	0.92[ASN][1000 genomes]
rs9996537	0.92[ASN][1000 genomes]
rs9996920	0.92[ASN][1000 genomes]
rs9999270	0.92[ASN][1000 genomes]
rs9999278	0.92[ASN][1000 genomes]
rs9999751	0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110278200-110279600	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
2	chr4:110278200-110282200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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